Here is my issue. I want to fork gnome and load it with custom apps and tweaks. I can download all the files and tweak them and what not. However I do not know how to package everything back up and turn it into a desktop session.
I kind of feel like an architect right now. I have designed a building on paper, but I lack the civil engineering in order to turn it into an actual building.
Are there any resources you can suggest so that I can continue on with the project?
GNOME uses JHBuild to build and test their projects, generally you can use jhbuild run pkg-config gtk+-2.0 --modversion in the project directory to test your fork. Take a look at JHBuild's documentation/manual for more information.